Gene loci information

Transcript annotation

  • This transcript has been annotated as Cytochrome c-type heme lyase.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_3 g2144 g2144.t7 TTS g2144.t7 15576828 15576828
chr_3 g2144 g2144.t7 isoform g2144.t7 15576863 15577976
chr_3 g2144 g2144.t7 exon g2144.t7.exon1 15576863 15577368
chr_3 g2144 g2144.t7 cds g2144.t7.CDS1 15576863 15577368
chr_3 g2144 g2144.t7 exon g2144.t7.exon2 15577440 15577768
chr_3 g2144 g2144.t7 cds g2144.t7.CDS2 15577440 15577755
chr_3 g2144 g2144.t7 exon g2144.t7.exon3 15577885 15577976
chr_3 g2144 g2144.t7 TSS g2144.t7 NA NA

Sequences

>g2144.t7 Gene=g2144 Length=927
TGAGCAAAAATTCTTAGAATCGTAAGGAAAATTTCAGAAACTTTTTGAAATCGAAATTTA
AAAAAAAACCTTATTTTATTAAAGAAATTCAAATCACACATAAAAATGGGTCAACAAATG
TCGATCGCTGTTGCTGCTGAGTCTGTTGTTTCATCACTCGACCACTCAAAAATACCAGAA
AATCATCCAAAGATTGAAGCTTCACATAAAATTCAAGAAATCCCACCGGAATGTCCAATG
CATCAAAAAAGCAAACCAGAGTCTAAAAAGCAAGAAGCAGTTTTAGTTTCAGAATGTCCT
ATTCAAGGTGATATTAATCCACTTAATATGATGCCTCCTGCAAATCAACAACCTTCACCC
GGTCAACCTTTTCCGCTTCCTACAGAACGTCAATTGTCCTCAATCCCTCGCGCTGTACCA
AGTCCTGATGGTAAAACTTTTTGGGAATATCCTAGTCAACAAATGTTCTGGAATGCAATG
CTTCGTAAAGGCTGGCGATGGAATGACGAAGATATTCAAGCAAAAGATATGGACGATATT
ATAAAAATTCATAATGCTAATAATGAACAAGCATGGCAAGAAGTCTTAAAATGGGAGGCT
CTTCATGCACGTGAATGCGGCAATCCAAAATTGAAAAGTTTTGGTGGAAAAGCAAAAGAT
TTTTCACCTCGAGCAAGAATTCGTCAAATGATGGGCTATGAATTACCTTTTGATCGTCAT
GATTGGATTGTTGATAGATGTGGAAAAGAAGTCCGTTACGTAATCGATTATTATGATGGA
GGAATGGTTGATGAAAAATACAAATTCGCAATTCTCGATGTTCGACCTGCTATGGACAGC
TTTGAAAATATCTGGGATAGAATGAAAGTCGCATATATGCGATGGAAATACGAGTATTTT
GACACTGAAACTGATAACAAGAACTAA

>g2144.t7 Gene=g2144 Length=273
MGQQMSIAVAAESVVSSLDHSKIPENHPKIEASHKIQEIPPECPMHQKSKPESKKQEAVL
VSECPIQGDINPLNMMPPANQQPSPGQPFPLPTERQLSSIPRAVPSPDGKTFWEYPSQQM
FWNAMLRKGWRWNDEDIQAKDMDDIIKIHNANNEQAWQEVLKWEALHARECGNPKLKSFG
GKAKDFSPRARIRQMMGYELPFDRHDWIVDRCGKEVRYVIDYYDGGMVDEKYKFAILDVR
PAMDSFENIWDRMKVAYMRWKYEYFDTETDNKN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g2144.t7 MobiDBLite mobidb-lite consensus disorder prediction 1 25 -
2 g2144.t7 PANTHER PTHR12743:SF0 CYTOCHROME C-TYPE HEME LYASE 33 261 3.2E-90
3 g2144.t7 PANTHER PTHR12743 CYTOCHROME C1 HEME LYASE 33 261 3.2E-90
1 g2144.t7 Pfam PF01265 Cytochrome c/c1 heme lyase 28 254 1.2E-68
5 g2144.t7 ProSitePatterns PS00821 Cytochrome c and c1 heme lyases signature 1. 149 164 -
4 g2144.t7 ProSitePatterns PS00822 Cytochrome c and c1 heme lyases signature 2. 201 207 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0005739 mitochondrion CC
GO:0004408 holocytochrome-c synthase activity MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below. There were no conditions that were differentially expressed